Showing 33 open source projects for "simulator linux"

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  • 1
    PhysiCell

    PhysiCell

    physics-based multicellular simulator

    PhysiCell is a cross-platform C++ framework for large, physics-based multicellular simulations.
    Downloads: 55 This Week
    Last Update:
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  • 2
    Mendel’s Accountant
    Mendel’s Accountant is a biologically realistic, forward-time, parallel, numerical simulation program which models genetic change within a population, as affected by mutation and selection.
    Downloads: 2 This Week
    Last Update:
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  • 3
    Pysces

    Pysces

    PySCeS is the Python Simulator of Cellular Systems

    PySCeS is the Python Simulator of Cellular Systems. For a network of coupled reactions it does a stoichiometric matrix analysis, calculates the time course and steady state, and does a complete control analysis.
    Downloads: 4 This Week
    Last Update:
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  • 4
    MesoRD is a stochastic and deterministic simulator of coupled chemical reactions and diffusions in space.
    Downloads: 0 This Week
    Last Update:
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  • 5
    MANTIS R Package

    MANTIS R Package

    Multi-locus ANTIgenic Simulator R-package for multi-strain pathogens

    This repository contains the most updated code version of MANTIS, the Multi-locus ANTIgenic Simulator R-package. MANTIS is developed and maintained by the Evolutionary Ecology of Infectious Disease (EEID) research group at the Department of Zoology, University of Oxford, UK. For theoretical background please refer to 'MANTIS: an R package that simulates multilocus models of pathogen evolution' (https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-015-0598-9 OPEN...
    Downloads: 0 This Week
    Last Update:
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  • 6

    Moose

    Multiscale Neuroscience and Systems Biology Simulator

    Moose is the core of a modern software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes. We have moved Github.com. This should be your source for the latest version of the code.
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    Downloads: 4 This Week
    Last Update:
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  • 7

    ReadSim

    Simple reads simulator for pacbio & nanopore

    Simple reads simulator for pacbio & nanopore
    Downloads: 0 This Week
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  • 8
    GENESIS (GEneral NEural SImulation System) is a software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes.
    Downloads: 0 This Week
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  • 9
    compare-results

    compare-results

    Program comparing Simulation Results for the SBML TestSuite

    Compare SBML Test Suite Results =============================== The [SBML Testsuite](http://sbml.org/Facilities/Online_SBML_Test_Suite) allows developers of ODE based simulators to test their implementation against a large number of test cases that test a wide aspect of the [SBML Specifications](http://sbml.org/Documents/Specifications). While implementing my simulator [RoadRunner](http://roadrunner.sf.net) I wanted to be able to compare it using a wider range of parameters: -...
    Downloads: 0 This Week
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  • 10

    TreeGrOSS Forest Growth Simulation

    Software for modelling tree growth

    Tree Growth Open Source Software is a Java based version of the forest growth simulator for north west Germany BWINPro.
    Downloads: 0 This Week
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  • 11
    yasimSBML
    YasimSBML (Yet another simulator for SBML) is a stochastic simulator of metabolic networks in SBML format. Unlike traditional simulators (Gillespie, etc.), it simulate the transformation of reactants into final products for the distribution analysis
    Downloads: 0 This Week
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  • 12
    TRMSim-WSN
    TRMSim-WSN (Trust and Reputation Models Simulator for Wireless Sensor Networks) is a Java-based simulator aimed to test Trust and Reputation models for WSNs. It provides several Trust and Reputation models and new ones can be easily added.
    Downloads: 0 This Week
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  • 13
    NetBuilder' - Apostrophe
    NetBuilder' is a tool for building, visualizing, and simulating multi-layered biological networks, structured as hierarchical Petri-nets. It has a built-in stochastic simulator, but also provides easy access to other simulation and analysis.
    Downloads: 3 This Week
    Last Update:
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  • 14
    Synthetic Biology Software Suite (SynBioSS) is composed of a wiki for biochemical kinetic constants, a graphical interface for simulating synthetic biological pathways, and a simulator that runs on either a desktop or supercomputer.
    Downloads: 1 This Week
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  • 15
    CheMecher is a fully-featured chemical simulator that supports an arbitrary number of reaction steps and chemical species. Uses the Runge-Kutta algorithm for numeric solutions.
    Downloads: 0 This Week
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  • 16
    URBAN – a Unified Rule-Based and Allosteric Network compiler and simulator for quantitative modelling in systems and synthetic biology
    Downloads: 0 This Week
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  • 17
    Software developed under MATLAB R14 environment. It's aim is to make the modeling of bacterial inactivation system and adjust a simulator to obtain new data of the experiment or validate the one that has been obtained at the laboratory.
    Downloads: 0 This Week
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  • 18
    Brian is a new simulator for spiking neural networks available on almost all platforms. The motivation for this project is that a simulator should not only save the time of processors, but also the time of scientists.
    Downloads: 0 This Week
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  • 19
    Meredys (MEsoscopic REaction DYnamics Simulator) is a particle based stochastic simulation software designed to model and simulate reaction-diffusion systems. (http://www.ebi.ac.uk/compneur-srv/meredys.html)
    Downloads: 4 This Week
    Last Update:
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  • 20
    4-Dimensional Cell Simulator (4DiCeS) is a framework on hybrid (stochastic and deterministic) modeling and simulation of (whole) cell environments in 4D. The framework may incorporate any reaction and diffusion algorithms applicable in a 4D grid layout.
    Downloads: 0 This Week
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  • 21
    The Automated Life Ecosystem Simulator is a microbe simulation environment developed in Java.
    Downloads: 0 This Week
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  • 22
    Cervelletto is a neural network simulator. It uses a new neural model based on biological, neurological and psychological studies. [it's not yet completed... just give me some weeks! sorry!]
    Downloads: 0 This Week
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  • 23
    Mito-MAS-m is a simulator of the mitochondrial inner membrane and the enzymatic complexes embedded in it, implementing a coarse-grained (CG) model of the molecules using rigid structures and Dissipative Particules Dynamics (DPD) as motion equation.
    Downloads: 0 This Week
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  • 24
    This project is A Mitochondrial OxydoReduction Simulation System. It consists of two linked projects: a program for displaying and analysing large biomolecular systems (Floral) and a multi-agent simulator for biomolecular oxydoreduction systems (AMORSS).
    Downloads: 0 This Week
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  • 25
    The aim of GUINNEA (Graphical User Interfaced Neural Network Architecture) is to develop a comfortable and high-featured neural net simulator which is highly configurable and flexible. It will support many neural nets and visualization features for those
    Downloads: 0 This Week
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